RnoINT0121150 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161823421-161825075:-
Coord C1 exon
chr4:161824926-161825075
Coord A exon
chr4:161823586-161824925
Coord C2 exon
chr4:161823421-161823585
Length
1340 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
CTTTGTTCTCCAATGTACAGATC
3' ss Score
7.65
Exon sequences
Seq C1 exon
GTGAATTTGAGTTTCCCATCAGCACAGAGCCTGCCAGCCTCTGACACCCACCTGACGGTCAAAGCCACACCTCTGTCCCTGTGTGCCCTCACTGCGGTCGACCAGAGTGTGCTGCTACTGAAGCCCGAAGCCAAGCTCTCTCCTCAATCA
Seq A exon
GTGAGTGTCCATTGCAGTCTTGAGTATCTAAAGATGCTGACAATGACCAGACCGTTTCTTGTAACCATAACCACGAAGGACAAGATTCTCACAGTGAGAAGCGTCATGTCGTCCCCTAACCGTCACTGAACGGAGTGCTCTGCAGATCCATCTCACTTTATGCTGGTGTTTCATAACAAGTGGATCATCATTTGGGGGAGGTCTTATCCCTTCACTTTATGAAACACAAACAGGCTGTGTTAATTGTGCTACAGTGCGTTTTAGAGAGATTAAAATTCCATCCGATCCGTTTGCTAACCGGCCACAGCTCAAGATGATTGCATAAGATGCCAGGTTTTTATGCTTTCCCTGAAATCAGGCACTTACGGATGTCTAGAGTGGACGAGAACAGTGTCTTCTCAAACATATCTCTAAAACGTCTTTGTGTTTTCAGAGAGGCATCAGAGAAGCATCCTCAGTTACAGGTTTCGCAGATGCTTCACCAGTCTTAAAGTTATCCTCTGTCCTCTCTGTAGAGACAAACGGTTCAGAAGTGATCTCTCTCCCTCTCTCTCTCTCTCTCCCTCTCCCCCTCTCCCTTTCTCCCTCTCTCCCTCTCTTCCCCTCTCCCCCTTTCCCTCTCTCCCTCTCTGCACCATTAACCACAACCCTGTCAGCCTCCAGCTCTGGTCTTCATTCTCTTCTACTTTCAGATCGATTTTGATAAGTTCACTTAATTTTTTTTTCCAGAAGGAATCTCATAAAGGTTGAGACTGTCCTTGAACTCATAGACTGGGGATAACCTTGAGTTTTCACCCTCACGGCTCTCCCTTCCAAGTGCAGGGGATTACATGTCTGCACAGGCGTGCCCAGTTTATGTAGGGCTGGAGATGAAATCCAAAGCTTCATGCATGTTAGTCAGATAAACATCTACCAATTGAGCTACATCTCCAACGTCTTATGTCTTCAAGTGTTATATTTTTCCATGAGGGTTAGAAACTTTGACATTCTGACTCTTTCATTTATTTATTTATTTATTCATTCATTCATTCATTCATTCATTTATTTATTTATTTATTTATTATATAAGTACACTGCAGCTGCCAGACACACCGGAAGAGGGCACCAGATCCCAGTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCAGGAAGGGCAGTCAGTGCTCTTGTGTTTCCCTGCCTCGTCCCTTGTGTAATGCACATGGCAAAGGTGACTAAAACCACTGTGGTGATTTAAACTCCATATTGAACATTGCCACATTAAAGTTCTTTAAGCGGTAGAACAAGAAACAGTTTCTCTTTGTTCTCCAATGTACAG
Seq C2 exon
ATCTATAATTTGCTGCCACAAAAGGCTGAGCAGGGGGCTTACTTAGGACCCCTACCGTACAAAGGCGGTGAGAACTGCATCAAAGCAGAAGACATCACTCACAACGGCATCGTGTACACACCAAAGCAGGATCTGAACGACAATGACGCATACAGCGTTTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF077039=A2M_N_2=PD(26.2=78.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTGAGTTTCCCATCAGCACAGA
R:
GCTGTATGCGTCATTGTCGTT
Band lengths:
302-1642
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]